get_eqtl: Calculate cis- and trans-eQTLs

In randel/MixRF: A Random-Forest-Based Approach for Imputing Clustered Incomplete Data

Description

Calculate cis- and trans-eQTLs

Usage

get_eqtl(ncore, Ynew, ssnpDat, snp.info, gene.info, cov)

Arguments

ncore	The number of cores for parallel computing.
Ynew	An array of expression data of dimension sample-by-gene-by-tissue, nxpxT, where n is sample size. p is the number of genes, and T is the number of tissues.
ssnpDat	The genotype data matrix (n by SNP size).
snp.info	Input for MatrixEQTL, with col.names snpID, chr, pos.
gene.info	Input for MatrixEQTL, with col.names geneID, chr, lpos, rpos.
cov	The covariates matrix for MatrixEQTL.

Value

A list contains the cis- and trans-eQTLs for each gene.

Examples

## Not run: 
# a fake example

# eqtl_list = get_eqtl(ncore=2, Ynew, ssnpDat, snp.info, gene.info, cov)

## End(Not run)

randel/MixRF documentation built on May 26, 2019, 10:59 p.m.